Unsupervised Learning Chapter Exploring Clustering Algorithms

Chapter 4:
Unsupervised Learning
CS583, Bing Liu, UIC 2
Road map
Basic concepts
K-means algorithm
Representation of clusters
Hierarchical clustering
Distance functions
Data standardization
Handling mixed attributes
Which clustering algorithm to use?
Cluster evaluation
Discovering holes and data regions
Summary
Supervised learning vs. unsupervised
learning
Supervised learning: discover patterns in the
data that relate data attributes with a target
(class) attribute.
These patterns are then utilized to predict the
values of the target attribute in future data
instances.
Unsupervised learning: The data have no
target attribute.
We want to explore the data to find some intrinsic
structures in them.
Clustering
Clustering is a technique for finding similarity groups
in data, called clusters. I.e.,
it groups data instances that are similar to (near) each other
in one cluster and data instances that are very different (far
away) from each other into different clusters.
Clustering is often called an unsupervised learning
task as no class values denoting an a priori grouping
of the data instances are given, which is the case in
supervised learning.
Due to historical reasons, clustering is often
considered synonymous with unsupervised learning.
In fact, association rule mining is also unsupervised
This chapter focuses on clustering.
An illustration
The data set has three natural groups of data points,
i.e., 3 natural clusters.
What is clustering for?
Let us see some real-life examples
Example 1: groups people of similar sizes
together to make small, medium and
large T-Shirts.
Tailor-made for each person: too expensive
One-size-fits-all: does not fit all.
Example 2: In marketing, segment customers
according to their similarities
To do targeted marketing.
What is clustering for? (cont)
Example 3: Given a collection of text
documents, we want to organize them
according to their content similarities,
To produce a topic hierarchy
In fact, clustering is one of the most utilized
data mining techniques.
It has a long history, and used in almost every
field, e.g., medicine, psychology, botany,
sociology, biology, archeology, marketing,
insurance, libraries, etc.
In recent years, due to the rapid increase of online
documents, text clustering becomes important.
Aspects of clustering
A clustering algorithm
Partitional clustering

A distance (similarity, or dissimilarity) function
Clustering quality
Inter-clusters distance maximized
Intra-clusters distance minimized
The quality of a clustering result depends on
the algorithm, the distance function, and the
application.

Road map
Basic concepts
K-means algorithm
Distance functions
Cluster evaluation
Summary
K-means clustering
K-means is a partitional clustering algorithm
Let the set of data points (or instances) D be
{x
1
, x
2
, , x
n
},
where x
i
= (x
i1
, x
i2
, , x
ir
) is a vector in a real-
valued space X _ R
r
, and r is the number of
attributes (dimensions) in the data.
The k-means algorithm partitions the given
data into k clusters.
Each cluster has a cluster center, called centroid.
k is specified by the user
K-means algorithm
Given k, the k-means algorithm works as
follows:
1)Randomly choose k data points (seeds) to be the
initial centroids, cluster centers
2)Assign each data point to the closest centroid
3)Re-compute the centroids using the current
cluster memberships.
4)If a convergence criterion is not met, go to 2).
K-means algorithm (cont )
Stopping/convergence criterion
1. no (or minimum) re-assignments of data
points to different clusters,
2. no (or minimum) change of centroids, or
3. minimum decrease in the sum of squared
error (SSE),

C
i
is the jth cluster, m
j
is the centroid of cluster C
j

(the mean vector of all the data points in C
j
), and
dist(x, m
j
) is the distance between data point x
and centroid m
j
.
=
e
=
k
j
C
j
j
dist SSE
1
2
) , (
x
m x (1)
An example
+
+
An example (cont )
An example distance function
A disk version of k-means
K-means can be implemented with data on
disk
In each iteration, it scans the data once.
as the centroids can be computed incrementally
It can be used to cluster large datasets that
do not fit in main memory
We need to control the number of iterations
In practice, a limited is set (< 50).
Not the best method. There are other scale-
up algorithms, e.g., BIRCH.

A disk version of k-means (cont )
Strengths of k-means
Strengths:
Simple: easy to understand and to implement
Efficient: Time complexity: O(tkn),
where n is the number of data points,
k is the number of clusters, and
t is the number of iterations.
Since both k and t are small. k-means is considered a
linear algorithm.
K-means is the most popular clustering algorithm.
Note that: it terminates at a local optimum if SSE is
used. The global optimum is hard to find due to
complexity.
Weaknesses of k-means
The algorithm is only applicable if the mean is
defined.
For categorical data, k-mode - the centroid is
represented by most frequent values.
The user needs to specify k.
The algorithm is sensitive to outliers
Outliers are data points that are very far away
from other data points.
Outliers could be errors in the data recording or
some special data points with very different values.

Weaknesses of k-means: Problems with
outliers
Weaknesses of k-means: To deal with
outliers
One method is to remove some data points in the
clustering process that are much further away from
the centroids than other data points.
To be safe, we may want to monitor these possible outliers
over a few iterations and then decide to remove them.
Another method is to perform random sampling.
Since in sampling we only choose a small subset of
the data points, the chance of selecting an outlier is
very small.
Assign the rest of the data points to the clusters by
distance or similarity comparison, or classification
Weaknesses of k-means (cont )
The algorithm is sensitive to initial seeds.
If we use different seeds: good results
There are some
methods to help
choose good
seeds
The k-means algorithm is not suitable for
discovering clusters that are not hyper-ellipsoids (or
hyper-spheres).
+
K-means summary
Despite weaknesses, k-means is still the
most popular algorithm due to its simplicity,
efficiency and
other clustering algorithms have their own lists of
weaknesses.
No clear evidence that any other clustering
algorithm performs better in general
although they may be more suitable for some
specific types of data or applications.
Comparing different clustering algorithms is a
difficult task. No one knows the correct
clusters!
Road map
Basic concepts
K-means algorithm
Distance functions
Cluster evaluation
Summary
Common ways to represent clusters
Use the centroid of each cluster to represent
the cluster.
compute the radius and
standard deviation of the cluster to determine its
spread in each dimension

The centroid representation alone works well if the
clusters are of the hyper-spherical shape.
If clusters are elongated or are of other shapes,
centroids are not sufficient
Using classification model
All the data points in a
cluster are regarded to
have the same class
label, e.g., the cluster ID.
run a supervised learning
algorithm on the data to
find a classification model.
Use frequent values to represent cluster
This method is mainly for clustering of
categorical data (e.g., k-modes clustering).
Main method used in text clustering, where a
small set of frequent words in each cluster is
selected to represent the cluster.
Clusters of arbitrary shapes
Hyper-elliptical and hyper-
spherical clusters are usually
easy to represent, using their
centroid together with spreads.
Irregular shape clusters are hard
to represent. They may not be
useful in some applications.
Using centroids are not suitable
(upper figure) in general
K-means clusters may be more
useful (lower figure), e.g., for making
2 size T-shirts.
Road map
Basic concepts
K-means algorithm
Distance functions
Cluster evaluation
Summary
Hierarchical Clustering
Produce a nested sequence of clusters, a tree,
also called Dendrogram.
Types of hierarchical clustering
Agglomerative (bottom up) clustering: It builds the
dendrogram (tree) from the bottom level, and
merges the most similar (or nearest) pair of clusters
stops when all the data points are merged into a single
cluster (i.e., the root cluster).
Divisive (top down) clustering: It starts with all data
points in one cluster, the root.
Splits the root into a set of child clusters. Each child cluster
is recursively divided further
stops when only singleton clusters of individual data points
remain, i.e., each cluster with only a single point
Agglomerative clustering
It is more popular then divisive methods.
At the beginning, each data point forms a
cluster (also called a node).
Merge nodes/clusters that have the least
distance.
Go on merging
Eventually all nodes belong to one cluster
Agglomerative clustering algorithm
An example: working of the algorithm
Measuring the distance of two clusters
A few ways to measure distances of two
clusters.
Results in different variations of the
algorithm.
Single link
Complete link
Average link
Centroids

Single link method
The distance between
two clusters is the
distance between two
closest data points in
the two clusters, one
data point from each
cluster.
It can find arbitrarily
shaped clusters, but
It may cause the
undesirable chain effect
by noisy points
Two natural clusters are
split into two
Complete link method
The distance between two clusters is the distance
of two furthest data points in the two clusters.
It is sensitive to outliers because they are far
away
Average link and centroid methods
Average link: A compromise between
the sensitivity of complete-link clustering to
outliers and
the tendency of single-link clustering to form long
chains that do not correspond to the intuitive
notion of clusters as compact, spherical objects.
In this method, the distance between two clusters
is the average distance of all pair-wise distances
between the data points in two clusters.
Centroid method: In this method, the distance
between two clusters is the distance between
their centroids
The complexity
All the algorithms are at least O(n
2
). n is the
number of data points.
Single link can be done in O(n
2
).
Complete and average links can be done in
O(n
2
logn).
Due the complexity, hard to use for large data
sets.
Sampling
Scale-up methods (e.g., BIRCH).
Road map
Basic concepts
K-means algorithm
Distance functions
Cluster evaluation
Summary
Distance functions
Key to clustering. similarity and
dissimilarity can also commonly used terms.
There are numerous distance functions for
Different types of data
Numeric data
Nominal data
Different specific applications

Distance functions for numeric attributes
Most commonly used functions are
Euclidean distance and
Manhattan (city block) distance
We denote distance with: dist(x
i
, x
j
), where x
i

and x
j
are data points (vectors)
They are special cases of Minkowski distance.
h is positive integer.
h
h
jr ir
h
j i
h
j i j i
x x x x x x dist
1
2 2 1 1
) ) ( ... ) ( ) (( ) , ( + + + = x x
Euclidean distance and Manhattan distance
If h = 2, it is the Euclidean distance

If h = 1, it is the Manhattan distance

Weighted Euclidean distance

2 2
2 2
2
1 1
) ( ... ) ( ) ( ) , (
jr ir j i j i j i
x x x x x x dist + + + = x x
| | ... | | | | ) , (
2 2 1 1 jr ir j i j i j i
2 2
2 2 2
2
1 1 1
) ( ... ) ( ) ( ) , (
jr ir r j i j i j i
x x w x x w x x w dist + + + = x x
Squared distance and Chebychev distance
Squared Euclidean distance: to place
progressively greater weight on data points
that are further apart.

Chebychev distance: one wants to define two
data points as "different" if they are different
on any one of the attributes.
2 2
2 2
2
1 1
) ( ... ) ( ) ( ) , (
jr ir j i j i j i
|) | ..., |, | |, max(| ) , (
2 2 1 1 jr ir j i j i j i
x x x x x x dist = x x
Distance functions for binary and
nominal attributes
Binary attribute: has two values or states but
no ordering relationships, e.g.,
Gender: male and female.
We use a confusion matrix to introduce the
distance functions/measures.
Let the ith and jth data points be x
i
and x
j

(vectors)

Confusion matrix
Symmetric binary attributes
A binary attribute is symmetric if both of its
states (0 and 1) have equal importance, and
carry the same weights, e.g., male and
female of the attribute Gender
Distance function: Simple Matching
Coefficient, proportion of mismatches of their
values
d c b a
c b
dist
j i
+ + +
+
= ) , ( x x
Symmetric binary attributes: example
Asymmetric binary attributes
Asymmetric: if one of the states is more
important or more valuable than the other.
By convention, state 1 represents the more
important state, which is typically the rare or
infrequent state.
Jaccard coefficient is a popular measure

We can have some variations, adding weights
c b a
c b
dist
j i
+ +
+
= ) , ( x x
Nominal attributes
Nominal attributes: with more than two states
or values.
the commonly used distance measure is also
based on the simple matching method.
Given two data points x
i
and x
j
, let the number of
attributes be r, and the number of values that
match in x
i
and x
j
be q.
r
q r
dist
j i

= ) , ( x x
Distance function for text documents
A text document consists of a sequence of
sentences and each sentence consists of a
sequence of words.
To simplify: a document is usually considered a
bag of words in document clustering.
Sequence and position of words are ignored.
A document is represented with a vector just like a
normal data point.
It is common to use similarity to compare two
documents rather than distance.
The most commonly used similarity function is the cosine
similarity. We will study this later.
Road map
Basic concepts
K-means algorithm
Distance functions
Cluster evaluation
Summary
In the Euclidean space, standardization of attributes
is recommended so that all attributes can have
equal impact on the computation of distances.
Consider the following pair of data points
x
i
: (0.1, 20) and x
j
: (0.9, 720).

The distance is almost completely dominated by
(720-20) = 700.
Standardize attributes: to force the attributes to have
a common value range

, 700.000457 ) 20 720 ( ) 1 . 0 9 . 0 ( ) , (
2 2
= + =
j i
dist x x
Interval-scaled attributes
Their values are real numbers following a
linear scale.
The difference in Age between 10 and 20 is the
same as that between 40 and 50.
The key idea is that intervals keep the same
importance through out the scale
Two main approaches to standardize interval
scaled attributes, range and z-score. f is an
attribute
,
) min( ) max(
) min(
) (
f f
f x
x range
if
if
=
Interval-scaled attributes (cont )
Z-score: transforms the attribute values so that they
have a mean of zero and a mean absolute
deviation of 1. The mean absolute deviation of
attribute f, denoted by s
f
, is computed as follows
( ), | | ... | | | |
1
2 1 f nf f f f f f
m x m x m x
n
s + + + =
( ), ...
1
2 1 nf f f f
x x x
n
m + + + =
. ) (
f
f if
if
s
m x
x z

= Z-score:
Ratio-scaled attributes
Numeric attributes, but unlike interval-scaled
attributes, their scales are exponential,
For example, the total amount of
microorganisms that evolve in a time t is
approximately given by
Ae
Bt
,
where A and B are some positive constants.
Do log transform:

Then treat it as an interval-scaled attribuete
) log(
if
x
Nominal attributes
Sometime, we need to transform nominal
attributes to numeric attributes.
Transform nominal attributes to binary
attributes.
The number of values of a nominal attribute is v.
Create v binary attributes to represent them.
If a data instance for the nominal attribute takes a
particular value, the value of its binary attribute is
set to 1, otherwise it is set to 0.
The resulting binary attributes can be used as
numeric attributes, with two values, 0 and 1.
Nominal attributes: an example
Nominal attribute fruit: has three values,
Apple, Orange, and Pear
We create three binary attributes called,
Apple, Orange, and Pear in the new data.
If a particular data instance in the original
data has Apple as the value for fruit,
then in the transformed data, we set the value of
the attribute Apple to 1, and
the values of attributes Orange and Pear to 0
Ordinal attributes
Ordinal attribute: an ordinal attribute is like a
nominal attribute, but its values have a
numerical ordering. E.g.,
Age attribute with values: Young, MiddleAge and
Old. They are ordered.
Common approach to standardization: treat is as
an interval-scaled attribute.
Road map
Basic concepts
K-means algorithm
Distance functions
Cluster evaluation
Summary
Mixed attributes
Our distance functions given are for data with
all numeric attributes, or all nominal
attributes, etc.
Practical data has different types:
Any subset of the 6 types of attributes,
interval-scaled,
symmetric binary,
asymmetric binary,
ratio-scaled,
ordinal and
nominal
Convert to a single type
One common way of dealing with mixed
attributes is to
Decide the dominant attribute type, and
Convert the other types to this type.
E.g, if most attributes in a data set are
interval-scaled,
we convert ordinal attributes and ratio-scaled
attributes to interval-scaled attributes.
It is also appropriate to treat symmetric binary
attributes as interval-scaled attributes.
Convert to a single type (cont )
It does not make much sense to convert a
nominal attribute or an asymmetric binary
attribute to an interval-scaled attribute,
but it is still frequently done in practice by
assigning some numbers to them according to
some hidden ordering, e.g., prices of the fruits
Alternatively, a nominal attribute can be
converted to a set of (symmetric) binary
attributes, which are then treated as numeric
attributes.
Combining individual distances
This approach computes
individual attribute
distances and then
combine them.

=
=
=
r
f
f
ij
f
ij
r
f
f
ij
j i
d
dist
1
1
) , (
o
o
x x
Road map
Basic concepts
K-means algorithm
Distance functions
Cluster evaluation
Summary
How to choose a clustering algorithm
Clustering research has a long history. A vast
collection of algorithms are available.
We only introduced several main algorithms.
Choosing the best algorithm is a challenge.
Every algorithm has limitations and works well with certain
data distributions.
It is very hard, if not impossible, to know what distribution
the application data follow. The data may not fully follow
any ideal structure or distribution required by the
algorithms.
One also needs to decide how to standardize the data, to
choose a suitable distance function and to select other
parameter values.
Choose a clustering algorithm (cont )
Due to these complexities, the common practice is
to
run several algorithms using different distance functions
and parameter settings, and
then carefully analyze and compare the results.
The interpretation of the results must be based on
insight into the meaning of the original data together
with knowledge of the algorithms used.
Clustering is highly application dependent and to
certain extent subjective (personal preferences).
Road map
Basic concepts
K-means algorithm
Distance functions
Cluster evaluation
Summary
Cluster Evaluation: hard problem
The quality of a clustering is very hard to
evaluate because
We do not know the correct clusters
Some methods are used:
User inspection
Study centroids, and spreads
Rules from a decision tree.
For text documents, one can read some documents in
clusters.
Cluster evaluation: ground truth
We use some labeled data (for classification)
Assumption: Each class is a cluster.
After clustering, a confusion matrix is
constructed. From the matrix, we compute
various measurements, entropy, purity,
precision, recall and F-score.
Let the classes in the data D be C = (c
1
, c
2
, , c
k
).
The clustering method produces k clusters, which
divides D into k disjoint subsets, D
1
, D
2
, , D
k
.

Evaluation measures: Entropy

Evaluation measures: purity
An example
A remark about ground truth evaluation
Commonly used to compare different clustering
algorithms.
A real-life data set for clustering has no class labels.
Thus although an algorithm may perform very well on some
labeled data sets, no guarantee that it will perform well on
the actual application data at hand.
The fact that it performs well on some label data
sets does give us some confidence of the quality of
the algorithm.
This evaluation method is said to be based on
external data or information.
Evaluation based on internal information
Intra-cluster cohesion (compactness):
Cohesion measures how near the data points in a
cluster are to the cluster centroid.
Sum of squared error (SSE) is a commonly used
measure.
Inter-cluster separation (isolation):
Separation means that different cluster centroids
should be far away from one another.
In most applications, expert judgments are
still the key.
Indirect evaluation
In some applications, clustering is not the primary
task, but used to help perform another task.
We can use the performance on the primary task to
compare clustering methods.
For instance, in an application, the primary task is to
provide recommendations on book purchasing to
online shoppers.
If we can cluster books according to their features, we
might be able to provide better recommendations.
We can evaluate different clustering algorithms based on
how well they help with the recommendation task.
Here, we assume that the recommendation can be reliably
evaluated.
Road map
Basic concepts
K-means algorithm
Distance functions
Cluster evaluation
Summary
Holes in data space
All the clustering algorithms only group data.
Clusters only represent one aspect of the
knowledge in the data.
Another aspect that we have not studied is
the holes.
A hole is a region in the data space that contains
no or few data points. Reasons:
insufficient data in certain areas, and/or
certain attribute-value combinations are not possible or
seldom occur.
Holes are useful too
Although clusters are important, holes in the
space can be quite useful too.
For example, in a disease database
we may find that certain symptoms and/or test
values do not occur together, or
when a certain medicine is used, some test values
never go beyond certain ranges.
Discovery of such information can be
important in medical domains because
it could mean the discovery of a cure to a disease
or some biological laws.
Data regions and empty regions
Given a data space, separate
data regions (clusters) and
empty regions (holes, with few or no data points).
Use a supervised learning technique, i.e.,
decision tree induction, to separate the two
types of regions.
Due to the use of a supervised learning
method for an unsupervised learning task,
an interesting connection is made between the
two types of learning paradigms.

Supervised learning for unsupervised
learning
Decision tree algorithm is not directly applicable.
it needs at least two classes of data.
A clustering data set has no class label for each data point.
The problem can be dealt with by a simple idea.
Regard each point in the data set to have a class label Y.
Assume that the data space is uniformly distributed with
another type of points, called non-existing points. We
give them the class, N.
With the N points added, the problem of partitioning
the data space into data and empty regions
becomes a supervised classification problem.
An example
A decision tree method is used for
partitioning in (B).
Can it done without adding N points?
Yes.
Physically adding N points increases the size
of the data and thus the running time.
More importantly: it is unlikely that we can
have points truly uniformly distributed in a
high dimensional space as we would need an
exponential number of points.
Fortunately, no need to physically add any N
points.
We can compute them when needed
Characteristics of the approach
It provides representations of the resulting data and
empty regions in terms of hyper-rectangles, or rules.
It detects outliers automatically. Outliers are data
points in an empty region.
It may not use all attributes in the data just as in a
normal decision tree for supervised learning.
It can automatically determine what attributes are useful.
Subspace clustering
Drawback: data regions of irregular shapes are hard
to handle since decision tree learning only generates
hyper-rectangles (formed by axis-parallel hyper-
planes), which are rules.

Building the Tree
The main computation in decision tree building is to
evaluate entropy (for information gain):

Can it be evaluated without adding N points? Yes.
Pr(c
j
) is the probability of class c
j
in data set D, and
|C| is the number of classes, Y and N (2 classes).
To compute Pr(c
j
), we only need the number of Y (data)
points and the number of N (non-existing) points.
We already have Y (or data) points, and we can compute
the number of N points on the fly. Simple: as we assume
that the N points are uniformly distributed in the space.

) Pr( log ) Pr( ) (
| |
1
2 j
C
j
j
c c D entropy

=
=
An example
The space has 25 data (Y) points and 25 N points.
Assume the system is evaluating a possible cut S.
# N points on the left of S is 25 * 4/10 = 10. The number of
Y points is 3.
Likewise, # N points on the right of S is 15 (= 25 - 10).The
number of Y points is 22.
With these numbers, entropy can be computed.
How many N points to add?
We add a different number of N points at each
different node.
The number of N points for the current node E is
determined by the following rule (note that at the root
node, the number of inherited N points is 0):
An example
How many N points to add? (cont)
Basically, for a Y node (which has more data
points), we increase N points so that
#Y = #N
The number of N points is not reduced if the
current node is an N node (an N node has
more N points than Y points).
A reduction may cause outlier Y points to form Y
nodes (a Y node has an equal number of Y points
as N points or more).
Then data regions and empty regions may not be
separated well.
Building the decision tree
Using the above ideas, a decision tree can be
built to separate data regions and empty
regions.
The actual method is more sophisticated as a
few other tricky issues need to be handled in
tree building and
tree pruning.

Road map
Basic concepts
K-means algorithm
Distance functions
Cluster evaluation
Summary
Summary
Clustering is has along history and still active
There are a huge number of clustering algorithms
More are still coming every year.
We only introduced several main algorithms. There are
many others, e.g.,
density based algorithm, sub-space clustering, scale-up
methods, neural networks based methods, fuzzy clustering,
co-clustering, etc.
Clustering is hard to evaluate, but very useful in
practice. This partially explains why there are still a
large number of clustering algorithms being devised
every year.
Clustering is highly application dependent and to some
extent subjective.

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